Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 286 of 292
Found at i:82529927 original size:3 final size:3
Alignment explanation
Indices: 82529919--82529943 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
82529909 ATAAAAATTC
82529919 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
82529944 AGACCACGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:82529934 original size:22 final size:21
Alignment explanation
Indices: 82529889--82529944 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
82529879 TTCTATTCAT
82529889 TAAAAATTATAAAAATATATA
1 TAAAAATTATAAAAATATATA
*
82529910 TAAAAATTCATAATAATA-ATAA
1 TAAAAATT-ATAAAAATATAT-A
* *
82529932 TAATAATAATAAA
1 TAAAAATTATAAA
82529945 GACCACGCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 14 0.48
22 15 0.52
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (21 bp):
TAAAAATTATAAAAATATATA
Found at i:82533818 original size:16 final size:16
Alignment explanation
Indices: 82533797--82533827 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
82533787 TTTATTATTT
82533797 TATTAACATAATATAA
1 TATTAACATAATATAA
*
82533813 TATTAATATAATATA
1 TATTAACATAATATA
82533828 TTAAAATATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TATTAACATAATATAA
Found at i:82534938 original size:2 final size:2
Alignment explanation
Indices: 82534931--82534961 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
82534921 CACAATTACG
82534931 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
82534962 TTTAAATTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:82536862 original size:23 final size:23
Alignment explanation
Indices: 82536832--82536878 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
82536822 TAACTTGAAA
82536832 TTTTTAAGTAAATAAAAATTATG
1 TTTTTAAGTAAATAAAAATTATG
82536855 TTTTTAAGTAAATAAAAATTATG
1 TTTTTAAGTAAATAAAAATTATG
82536878 T
1 T
82536879 ATTGCCATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.45
Consensus pattern (23 bp):
TTTTTAAGTAAATAAAAATTATG
Found at i:82537202 original size:51 final size:50
Alignment explanation
Indices: 82537130--82537237 Score: 139
Period size: 51 Copynumber: 2.2 Consensus size: 50
82537120 TTTTCTTATA
* *
82537130 AATTTTTAATAGTTTCTATATTTTTTATATC-TTTATAATAAATTTTAAT
1 AATTTTTAAAAGTTTCTATATTTTTTATATCTTTTATAATAAACTTTAAT
* *
82537179 AATTTTCTAAAAGTTTTCTATATTTTTTTTATCTTTTATAATGAACTTTAA-
1 AATTTT-TAAAAG-TTTCTATATTTTTTATATCTTTTATAATAAACTTTAAT
*
82537230 CATTTTTA
1 AATTTTTA
82537238 TATTTTTAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
49 6 0.12
50 7 0.14
51 23 0.45
52 15 0.29
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.58
Consensus pattern (50 bp):
AATTTTTAAAAGTTTCTATATTTTTTATATCTTTTATAATAAACTTTAAT
Found at i:82537236 original size:81 final size:83
Alignment explanation
Indices: 82537149--82537348 Score: 218
Period size: 81 Copynumber: 2.4 Consensus size: 83
82537139 TAGTTTCTAT
* *
82537149 ATTTTTTATATCTTTATAATAAATTTTAATAATTTTCTA-AAAGTTTTCTATATTTT-TTT-TAT
1 ATTTTTTATATCTTTATAATAAATTTTAATAATTTTCTATAAA-TTTT-AAAATTTTATTTGTAT
*
82537211 CTTTTATAATGAACTTTAAC
64 CTTTTATAATAAACTTTAAC
** *
82537231 A-TTTTTATAT-TTT-T-A-AAATGTTTTCTATATTGTTTTATAAATTTTAAAATTTTATTTGTA
1 ATTTTTTATATCTTTATAATAAAT-TTTAATA-ATT-TTCTATAAATTTTAAAATTTTATTTGTA
*
82537291 TCTTTTATAATAAACTTTAAT
63 TCTTTTATAATAAACTTTAAC
*
82537312 ATTTTTTATATCTTTTATAATAAAATTTAATAATTTT
1 ATTTTTTATATC-TTTATAATAAATTTTAATAATTTT
82537349 ATTTTTTTAT
Statistics
Matches: 96, Mismatches: 10, Indels: 22
0.75 0.08 0.17
Matches are distributed among these distances:
77 4 0.04
78 6 0.06
79 10 0.10
80 14 0.15
81 34 0.35
82 10 0.10
84 5 0.05
85 4 0.04
86 6 0.06
87 3 0.03
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (83 bp):
ATTTTTTATATCTTTATAATAAATTTTAATAATTTTCTATAAATTTTAAAATTTTATTTGTATCT
TTTATAATAAACTTTAAC
Found at i:82537327 original size:31 final size:31
Alignment explanation
Indices: 82537289--82537348 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
82537279 ATTTTATTTG
* *
82537289 TATCTTTTATAATAAACTTTAATATTTTTTA
1 TATCTTTTATAATAAAATTTAATAATTTTTA
82537320 TATCTTTTATAATAAAATTTAATAATTTT
1 TATCTTTTATAATAAAATTTAATAATTTT
82537349 ATTTTTTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (31 bp):
TATCTTTTATAATAAAATTTAATAATTTTTA
Found at i:82537535 original size:29 final size:30
Alignment explanation
Indices: 82537477--82537562 Score: 95
Period size: 30 Copynumber: 2.8 Consensus size: 30
82537467 CTATACTTTA
*
82537477 TTTTATCTTTTATAATAAATTTTAACAAATGT
1 TTTTATATTTT-TAATAAATTTTAACAAAT-T
*
82537509 TTTTATATTTTTAAT-ATTTTTAA-AAATT
1 TTTTATATTTTTAATAAATTTTAACAAATT
*
82537537 TTTCTATATTTTTTTATAAATTTTAA
1 TTT-TATA-TTTTTAATAAATTTTAA
82537563 TTTTTTCTAC
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
28 4 0.09
29 8 0.17
30 14 0.30
31 11 0.23
32 10 0.21
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.60
Consensus pattern (30 bp):
TTTTATATTTTTAATAAATTTTAACAAATT
Found at i:82537624 original size:42 final size:44
Alignment explanation
Indices: 82537541--82537627 Score: 108
Period size: 42 Copynumber: 2.0 Consensus size: 44
82537531 AAAATTTTTC
* * *
82537541 TATATTTTTTTATAAATTTTAATTTTTTCTACTTTTATAAATTT
1 TATATTTTATAATAAAATTTAATTTTTTCTACTTTTATAAATTT
*
82537585 TATATTTTATAATAAAATTT-A-TTTTTCTA-TATTTCTAAATTT
1 TATATTTTATAATAAAATTTAATTTTTTCTACT-TTTATAAATTT
82537627 T
1 T
82537628 TTTTAATAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
41 1 0.03
42 19 0.50
43 1 0.03
44 17 0.45
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (44 bp):
TATATTTTATAATAAAATTTAATTTTTTCTACTTTTATAAATTT
Found at i:82537639 original size:21 final size:21
Alignment explanation
Indices: 82537615--82537671 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 21
82537605 ATTTTTCTAT
*
82537615 ATTTCTAAATTTTTTTTAATA
1 ATTTCTAAATTTTTTTAAATA
* * *
82537636 ATTTTTAGATGTTTTTAAATA
1 ATTTCTAAATTTTTTTAAATA
* *
82537657 TTTTACTATATTTTT
1 ATTT-CTAAATTTTT
82537672 GTACTTCAAA
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
21 20 0.74
22 7 0.26
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.63
Consensus pattern (21 bp):
ATTTCTAAATTTTTTTAAATA
Found at i:82538076 original size:19 final size:19
Alignment explanation
Indices: 82538063--82538100 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
82538053 ATATTGTTTT
82538063 ATAAATTTTATATTTTATA
1 ATAAATTTTATATTTTATA
*
82538082 ATAAATTTTATTTTTTATA
1 ATAAATTTTATATTTTATA
82538101 TTTCGAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
ATAAATTTTATATTTTATA
Found at i:82538135 original size:19 final size:18
Alignment explanation
Indices: 82538109--82538148 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
82538099 TATTTCGAAC
*
82538109 AAATTTTTAATAATTTTT
1 AAATTTTTAATAAATTTT
*
82538127 AAATGTTTTTATAAATTTT
1 AAAT-TTTTAATAAATTTT
82538146 AAA
1 AAA
82538149 AAAATTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (18 bp):
AAATTTTTAATAAATTTT
Found at i:82548094 original size:21 final size:21
Alignment explanation
Indices: 82548070--82548110 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
82548060 ACAACAAAAC
**
82548070 AGTGAGAAAACTGCAGCAAAT
1 AGTGAGAAAACAACAGCAAAT
*
82548091 AGTGGGAAAACAACAGCAAA
1 AGTGAGAAAACAACAGCAAA
82548111 ACAACTGGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.51, C:0.15, G:0.24, T:0.10
Consensus pattern (21 bp):
AGTGAGAAAACAACAGCAAAT
Found at i:82550095 original size:19 final size:19
Alignment explanation
Indices: 82550060--82550097 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
82550050 TTTTTCAAAA
82550060 ATAAAAAACAAATATAAAT
1 ATAAAAAACAAATATAAAT
*
82550079 ATAATAAAATAAA-ATAAAT
1 ATAA-AAAACAAATATAAAT
82550098 TGAAGTGGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (19 bp):
ATAAAAAACAAATATAAAT
Found at i:82553499 original size:208 final size:208
Alignment explanation
Indices: 82553134--82553551 Score: 791
Period size: 208 Copynumber: 2.0 Consensus size: 208
82553124 AGGTTAAAAA
82553134 TTTTATAAGTGTTAAATTCAACTTTTAGTATACCAAATAATTACTTATTTATAAATTATATTTAA
1 TTTTATAAGTGTTAAATTCAACTTTTAGTATACCAAATAATTACTTATTTATAAATTATATTTAA
82553199 AAAATCTAAAAATATAAATTTTAAATTCATAAATATGTTTACATAATATTACAACTTATGAATTT
66 AAAATCTAAAAATATAAATTTTAAATTCATAAATATGTTTACATAATATTACAACTTATGAATTT
* *
82553264 GAGGCGCCTTGCTACTTAGAGTTGAGTTTCATCCTTCGTGATCACCATGTTTAGATTTCTCTCAA
131 GAGGCGCCTTGCTACCTAGAGTTGAGTTTCATCCTTCGTGATCACCATGTCTAGATTTCTCTCAA
*
82553329 ATTTATTTTGGAT
196 ATTTATTCTGGAT
* *
82553342 TTTTATGAGTGTTAAATTCAACTTTTAGTATATCAAATAATTACTTATTTATAAATTATATTTAA
1 TTTTATAAGTGTTAAATTCAACTTTTAGTATACCAAATAATTACTTATTTATAAATTATATTTAA
82553407 AAAATCTAAAAATATAAATTTTAAATTCATAAATATGTTTACATAATATTACAACTTATGAATTT
66 AAAATCTAAAAATATAAATTTTAAATTCATAAATATGTTTACATAATATTACAACTTATGAATTT
82553472 GAGGCGCCTTGCTACCTAGAGTTGAGTTTCATCCTTCGTGATCACCATGTCTAGATTTCTCTCAA
131 GAGGCGCCTTGCTACCTAGAGTTGAGTTTCATCCTTCGTGATCACCATGTCTAGATTTCTCTCAA
82553537 ATTTATTCTGGAT
196 ATTTATTCTGGAT
82553550 TT
1 TT
82553552 AAGTCCATAA
Statistics
Matches: 205, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
208 205 1.00
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.43
Consensus pattern (208 bp):
TTTTATAAGTGTTAAATTCAACTTTTAGTATACCAAATAATTACTTATTTATAAATTATATTTAA
AAAATCTAAAAATATAAATTTTAAATTCATAAATATGTTTACATAATATTACAACTTATGAATTT
GAGGCGCCTTGCTACCTAGAGTTGAGTTTCATCCTTCGTGATCACCATGTCTAGATTTCTCTCAA
ATTTATTCTGGAT
Found at i:82553976 original size:26 final size:27
Alignment explanation
Indices: 82553917--82553986 Score: 65
Period size: 25 Copynumber: 2.6 Consensus size: 27
82553907 AAATTAAAAT
*
82553917 ATATATATATTTTATAAAAAAAAGTGATA
1 ATATA-ATA-TTTATAAAAAAAAGTAATA
82553946 A-ATAATATTT-TAAAAAAAA-TCAATA
1 ATATAATATTTATAAAAAAAAGT-AATA
*
82553971 ATATAAATATTCATAA
1 ATAT-AATATTTATAA
82553987 TGGAAGTAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
24 1 0.03
25 13 0.37
26 5 0.14
27 9 0.26
28 6 0.17
29 1 0.03
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (27 bp):
ATATAATATTTATAAAAAAAAGTAATA
Found at i:82556254 original size:17 final size:17
Alignment explanation
Indices: 82556221--82556254 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
82556211 TTGATTAACA
* *
82556221 ATTATTTTTTAATTTTT
1 ATTATTTTTCAAATTTT
82556238 ATTATTTTTCAAATTTT
1 ATTATTTTTCAAATTTT
82556255 CTTACCAAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTATTTTTCAAATTTT
Found at i:82559163 original size:8 final size:8
Alignment explanation
Indices: 82559150--82559180 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
82559140 TAATATAAAA
82559150 AATCGTAT
1 AATCGTAT
82559158 AATCGTAT
1 AATCGTAT
82559166 AATCGTAT
1 AATCGTAT
82559174 AATCGTA
1 AATCGTA
82559181 CAATTTTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (8 bp):
AATCGTAT
Found at i:82564976 original size:2 final size:2
Alignment explanation
Indices: 82564971--82564995 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
82564961 ATTTTTTTAT
82564971 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
82564996 CAACATTCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:82565071 original size:22 final size:21
Alignment explanation
Indices: 82565029--82565069 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
82565019 TATTTTATGA
82565029 GAGCAATTATTAATGTTAAATT
1 GAGCAATTATT-ATGTTAAATT
82565051 GAGCAATTAATT-TGTTAAA
1 GAGCAATT-ATTATGTTAAA
82565070 ATATTAATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 8 0.44
23 3 0.17
ACGTcount: A:0.41, C:0.05, G:0.15, T:0.39
Consensus pattern (21 bp):
GAGCAATTATTATGTTAAATT
Found at i:82568693 original size:24 final size:23
Alignment explanation
Indices: 82568648--82568693 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
82568638 CTCAACTAAA
* *
82568648 ATTTTATTTTAATATTTTTATAC
1 ATTTTATTTTAATACTTCTATAC
*
82568671 ATTTTAATTTTATTACTTCTATA
1 ATTTT-ATTTTAATACTTCTATA
82568694 AGTTGTACGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (23 bp):
ATTTTATTTTAATACTTCTATAC
Found at i:82572999 original size:30 final size:30
Alignment explanation
Indices: 82572963--82573020 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
82572953 AGCTAGATTG
82572963 TAAATTGGTAACCAAACTCCAAAATATTTA
1 TAAATTGGTAACCAAACTCCAAAATATTTA
*
82572993 TAAATTGGTAACCGAACTCCAAAATATT
1 TAAATTGGTAACCAAACTCCAAAATATT
82573021 GTAGTTGAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.45, C:0.17, G:0.09, T:0.29
Consensus pattern (30 bp):
TAAATTGGTAACCAAACTCCAAAATATTTA
Found at i:82574265 original size:6 final size:6
Alignment explanation
Indices: 82574251--82574300 Score: 84
Period size: 6 Copynumber: 8.5 Consensus size: 6
82574241 TTATAACACT
*
82574251 AAAAAG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAA-G
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG
82574298 AAA
1 AAA
82574301 TATTATATAT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
5 4 0.09
6 39 0.91
ACGTcount: A:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (6 bp):
AAAATG
Found at i:82586997 original size:20 final size:20
Alignment explanation
Indices: 82586960--82586997 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
82586950 AATTTAATAC
*
82586960 ACTAAAATTTTATCATTTCA
1 ACTAAAATTTAATCATTTCA
82586980 ACTAAAACTTTAAT-ATTT
1 ACTAAAA-TTTAATCATTT
82586998 TTAATATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (20 bp):
ACTAAAATTTAATCATTTCA
Found at i:82587593 original size:30 final size:30
Alignment explanation
Indices: 82587557--82587619 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
82587547 CTTAACTATT
*
82587557 TTTAATTATA-TT-TAAAATATAATATAATCA
1 TTTAATTA-AGTTATAAAATATAAT-TAATAA
*
82587587 TTTAATTAAGTTATTAAATATAATTAATAA
1 TTTAATTAAGTTATAAAATATAATTAATAA
82587617 TTT
1 TTT
82587620 TATATAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 1 0.03
30 18 0.62
31 10 0.34
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (30 bp):
TTTAATTAAGTTATAAAATATAATTAATAA
Found at i:82587613 original size:22 final size:23
Alignment explanation
Indices: 82587588--82587631 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
82587578 ATATAATCAT
82587588 TTAATTAA-GTTAT-TAAATATAA
1 TTAA-TAATGTTATATAAATATAA
*
82587610 TTAATAATTTTATATAAATATA
1 TTAATAATGTTATATAAATATA
82587632 TATTTACATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 3 0.16
22 8 0.42
23 8 0.42
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
TTAATAATGTTATATAAATATAA
Found at i:82589528 original size:22 final size:22
Alignment explanation
Indices: 82589477--82589537 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
82589467 ATAAGTAAAT
* *
82589477 ACAAAAATAA-AGGAAAATATA
1 ACAAAAATAATAGAAAAATACA
* *
82589498 ATAACAATAATAGAAAAATACA
1 ACAAAAATAATAGAAAAATACA
* *
82589520 ACAATAATAATAGTAAAA
1 ACAAAAATAATAGAAAAA
82589538 GATATAATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.18
Consensus pattern (22 bp):
ACAAAAATAATAGAAAAATACA
Found at i:82589637 original size:3 final size:3
Alignment explanation
Indices: 82589629--82589747 Score: 57
Period size: 3 Copynumber: 39.7 Consensus size: 3
82589619 AAAGTAGTGC
* * * * *
82589629 TAA TAA TAA TAA TAA TAA TAA TAA TGA TGA T-C TAT TAA TTA TAA TGAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
* * * * *
82589677 -AA TAA TGA TAA TGA TGA T-A TAT TAGA TAA TAA TAG TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
* * *
82589720 TAA GTAA CAA TGA TAAA TTA TAA TAA TA
1 TAA -TAA TAA TAA T-AA TAA TAA TAA TA
82589748 GTGATGAGAA
Statistics
Matches: 89, Mismatches: 19, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
2 7 0.08
3 73 0.82
4 9 0.10
ACGTcount: A:0.55, C:0.02, G:0.08, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:82589681 original size:35 final size:35
Alignment explanation
Indices: 82589629--82589746 Score: 123
Period size: 35 Copynumber: 3.3 Consensus size: 35
82589619 AAAGTAGTGC
*
82589629 TAATAATAAT-AATAATAATAATAATGATGATCTAT
1 TAATAATAATGAA-AATAATAATAATGATGATATAT
* *
82589664 TAATTATAATGAAAATAATGATAATGATGATATAT
1 TAATAATAATGAAAATAATAATAATGATGATATAT
** *
82589699 TAGATAATAATAGTAAAATAATAAGTAACAATGATAAAT
1 TA-ATAATAAT-G-AAAATAATAA-TAATGATGATATAT
82589738 T-ATAATAAT
1 TAATAATAAT
82589747 AGTGATGAGA
Statistics
Matches: 70, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
35 31 0.44
36 9 0.13
37 9 0.13
38 9 0.13
39 12 0.17
ACGTcount: A:0.55, C:0.02, G:0.08, T:0.35
Consensus pattern (35 bp):
TAATAATAATGAAAATAATAATAATGATGATATAT
Found at i:82589768 original size:16 final size:16
Alignment explanation
Indices: 82589747--82589778 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
82589737 TTATAATAAT
82589747 AGTGATGAGAATAACA
1 AGTGATGAGAATAACA
*
82589763 AGTGATGATAATAACA
1 AGTGATGAGAATAACA
82589779 GTAACAATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (16 bp):
AGTGATGAGAATAACA
Found at i:82589911 original size:16 final size:15
Alignment explanation
Indices: 82589882--82589924 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
82589872 TATACGTATG
*
82589882 AAAAATAATGATAGT
1 AAAAATAATAATAGT
82589897 AAAATATAATAATAGT
1 AAAA-ATAATAATAGT
*
82589913 AATAATAATAAT
1 AAAAATAATAAT
82589925 GGAATGAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
AAAAATAATAATAGT
Found at i:82590027 original size:3 final size:3
Alignment explanation
Indices: 82590019--82590054 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
82590009 ACACTACCAT
82590019 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
82590055 TAGAAATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:82590147 original size:3 final size:3
Alignment explanation
Indices: 82590134--82590178 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
82590124 ATATATGTAC
*
82590134 ATA AAA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
82590179 TTAAAATGCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:82591574 original size:205 final size:205
Alignment explanation
Indices: 82591208--82591997 Score: 1318
Period size: 205 Copynumber: 3.9 Consensus size: 205
82591198 AGATTTATTT
* * * * * * * * *
82591208 CTTCGATTTGATCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTAACGTAAGCAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
** * * * * *
82591273 GCGAAAGCCAAATCAACTATG-ATTCGATTTGTTCCTTGTAAGCATAAGGATGCCAATCCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
* *
82591337 GGATCCGTTTCAGCATAAACATCCGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
131 GGATCCGCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
82591402 AGATGCCAAA
196 AGATGCCAAA
82591412 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
82591477 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
* *
82591542 GGATCTGCTTCAGCGA-AATCATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTG
131 GGATCCGCTTCAGC-ATAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTG
82591606 AAGATGCCAAA
195 AAGATGCCAAA
82591617 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
82591682 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
82591747 GGATCCGCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
131 GGATCCGCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
82591812 AGATGCCAAA
196 AGATGCCAAA
82591822 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
82591887 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
* * *
82591952 GGATCTGCTTCAG--TGAAATCGTCTGAAGGCGAGATCTGCTATGTGT
131 GGATCCGCTTCAGCAT-AAA-CATCTGAAGGTGAGATCTGCTATGTGT
82591998 GGCCTATTAC
Statistics
Matches: 556, Mismatches: 25, Indels: 9
0.94 0.04 0.02
Matches are distributed among these distances:
203 1 0.00
204 78 0.14
205 476 0.86
206 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (205 bp):
CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
GGATCCGCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
AGATGCCAAA
Found at i:82599961 original size:13 final size:13
Alignment explanation
Indices: 82599943--82599967 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
82599933 CCAGATTTTC
82599943 TTTTCTACCTCTT
1 TTTTCTACCTCTT
82599956 TTTTCTACCTCT
1 TTTTCTACCTCT
82599968 ATGCAAAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.32, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTTCTACCTCTT
Found at i:82600055 original size:15 final size:14
Alignment explanation
Indices: 82600013--82600062 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
82600003 ATAACTTTGA
*
82600013 ATGCAAATGATGTG
1 ATGCAAATGATGAG
82600027 ATG-AAATGTTATGAG
1 ATGCAAATG--ATGAG
82600042 ATGCAAATGCATGA-
1 ATGCAAATG-ATGAG
82600056 ATGCAAA
1 ATGCAAA
82600063 AAGAATATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.32
15 11 0.35
16 5 0.16
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (14 bp):
ATGCAAATGATGAG
Found at i:82604067 original size:15 final size:14
Alignment explanation
Indices: 82604025--82604074 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
82604015 ATAACTTTGA
*
82604025 ATGCAAATGATGTG
1 ATGCAAATGATGAG
82604039 ATG-AAATGTTATGAG
1 ATGCAAATG--ATGAG
82604054 ATGCAAATGCATGA-
1 ATGCAAATG-ATGAG
82604068 ATGCAAA
1 ATGCAAA
82604075 AAGAATATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.32
15 11 0.35
16 5 0.16
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (14 bp):
ATGCAAATGATGAG
Found at i:82607928 original size:22 final size:22
Alignment explanation
Indices: 82607877--82607937 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
82607867 ATAAGTAAAT
* *
82607877 ACAAAAATAA-AGGAAAATATA
1 ACAAAAATAATAGAAAAATACA
* *
82607898 ATAACAATAATAGAAAAATACA
1 ACAAAAATAATAGAAAAATACA
* *
82607920 ACAATAATAATAGTAAAA
1 ACAAAAATAATAGAAAAA
82607938 GATATAATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.18
Consensus pattern (22 bp):
ACAAAAATAATAGAAAAATACA
Found at i:82608037 original size:3 final size:3
Alignment explanation
Indices: 82608029--82608056 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
82608019 AAAGTAGTGC
82608029 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
82608057 GATGATCTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:82608077 original size:36 final size:36
Alignment explanation
Indices: 82608034--82608126 Score: 111
Period size: 36 Copynumber: 2.6 Consensus size: 36
82608024 AGTGCTAATA
*
82608034 ATAATAATAATAATAATAATAATGATGATCTATTA-
1 ATAATAATAATAATAATAATAATGATGATATATTAG
* *
82608069 AGTTATAATGAA-AATAATGATAATGATGATATATTAG
1 A-TAATAAT-AATAATAATAATAATGATGATATATTAG
*
82608106 ATAATAATAGTAA-AATAATAA
1 ATAATAATAATAATAATAATAA
82608127 GTAACAATGA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
35 9 0.19
36 36 0.75
37 3 0.06
ACGTcount: A:0.55, C:0.01, G:0.10, T:0.34
Consensus pattern (36 bp):
ATAATAATAATAATAATAATAATGATGATATATTAG
Found at i:82608172 original size:16 final size:16
Alignment explanation
Indices: 82608151--82608182 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
82608141 TTATAATAAT
82608151 AGTGATGAGAATAACA
1 AGTGATGAGAATAACA
*
82608167 AGTGATGATAATAACA
1 AGTGATGAGAATAACA
82608183 GTAACAATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (16 bp):
AGTGATGAGAATAACA
Found at i:82608315 original size:16 final size:15
Alignment explanation
Indices: 82608286--82608328 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
82608276 TATACGTATG
*
82608286 AAAAATAATGATAGT
1 AAAAATAATAATAGT
82608301 AAAATATAATAATAGT
1 AAAA-ATAATAATAGT
*
82608317 AATAATAATAAT
1 AAAAATAATAAT
82608329 GGAATGAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
AAAAATAATAATAGT
Found at i:82608431 original size:3 final size:3
Alignment explanation
Indices: 82608423--82608467 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
82608413 ACACTACCAT
82608423 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
82608468 TAGAAATACA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:82608569 original size:3 final size:3
Alignment explanation
Indices: 82608561--82608598 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
82608551 AAATATACAC
82608561 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
82608599 TTAAAATGCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:82609094 original size:31 final size:30
Alignment explanation
Indices: 82609056--82609134 Score: 117
Period size: 28 Copynumber: 2.7 Consensus size: 30
82609046 GATTTTTTGT
82609056 TCTTGAATCTCAAAAAAAAAGAAAAATCCCC
1 TCTTGAATCTCAAAAAAAAA-AAAAATCCCC
* *
82609087 TCTTGAATCTC--AAAAAAAAAAAATCTCT
1 TCTTGAATCTCAAAAAAAAAAAAAATCCCC
82609115 TCTTGAATCTCAAAAAAAAA
1 TCTTGAATCTCAAAAAAAAA
82609135 TTCTTCTCTC
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
28 19 0.43
29 7 0.16
30 7 0.16
31 11 0.25
ACGTcount: A:0.52, C:0.19, G:0.05, T:0.24
Consensus pattern (30 bp):
TCTTGAATCTCAAAAAAAAAAAAAATCCCC
Found at i:82612150 original size:18 final size:19
Alignment explanation
Indices: 82612127--82612169 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
82612117 CGTTAGATAG
*
82612127 ACTTAAAAATGGG-AAAAA
1 ACTTAAAAAAGGGAAAAAA
82612145 ACTTAAAAAAGGGAAAAAA
1 ACTTAAAAAAGGGAAAAAA
82612164 ACTTAA
1 ACTTAA
82612170 CAACCTAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.63, C:0.07, G:0.14, T:0.16
Consensus pattern (19 bp):
ACTTAAAAAAGGGAAAAAA
Found at i:82615681 original size:4 final size:4
Alignment explanation
Indices: 82615647--82615694 Score: 51
Period size: 4 Copynumber: 12.0 Consensus size: 4
82615637 TTGTTGTTAA
* * * * *
82615647 ATAT AAAT ATAT GTAT ATCT ATCT ATCT ATAT ATAT ATAT ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
82615695 TTCCTTGTCG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (4 bp):
ATAT
Found at i:82615683 original size:6 final size:6
Alignment explanation
Indices: 82615647--82615694 Score: 51
Period size: 6 Copynumber: 8.0 Consensus size: 6
82615637 TTGTTGTTAA
* * * * *
82615647 ATATAA ATATAT GTATAT CTATCT ATCTAT ATATAT ATATAT ATATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
82615695 TTCCTTGTCG
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (6 bp):
ATATAT
Found at i:82616659 original size:29 final size:30
Alignment explanation
Indices: 82616627--82616683 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
82616617 ATTAATAAAA
* *
82616627 ATAAAATTATACTTTAATCTC-TAAAAATG
1 ATAAAATTATAATTTAATCCCTTAAAAATG
*
82616656 ATAAAATTTTAATTTAATCCCTTAAAAA
1 ATAAAATTATAATTTAATCCCTTAAAAA
82616684 ATATATTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 18 0.75
30 6 0.25
ACGTcount: A:0.49, C:0.11, G:0.02, T:0.39
Consensus pattern (30 bp):
ATAAAATTATAATTTAATCCCTTAAAAATG
Found at i:82617200 original size:18 final size:17
Alignment explanation
Indices: 82617173--82617207 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
82617163 ATGATATCTT
82617173 TATTTTATTAGTATAAA
1 TATTTTATTAGTATAAA
*
82617190 TATTATTATTATTATAAA
1 TATT-TTATTAGTATAAA
82617208 AAATGTGAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
TATTTTATTAGTATAAA
Found at i:82620492 original size:21 final size:21
Alignment explanation
Indices: 82620468--82620508 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
82620458 ATTTGCTCAA
* *
82620468 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
82620489 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
82620509 TCGCTTGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:82634068 original size:15 final size:16
Alignment explanation
Indices: 82634035--82634071 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
82634025 CTTAATCCTA
82634035 TTTTTGATAAATTATT
1 TTTTTGATAAATTATT
82634051 TTTTTGATAAATTATT
1 TTTTTGATAAATTATT
82634067 TTTTT
1 TTTTT
82634072 AATTTAACAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (16 bp):
TTTTTGATAAATTATT
Found at i:82634157 original size:34 final size:35
Alignment explanation
Indices: 82634109--82634179 Score: 135
Period size: 34 Copynumber: 2.1 Consensus size: 35
82634099 TGGCAGGTGC
82634109 CTTAAGGGGGTGAGTCAAGGTGAATACTGATGCAG
1 CTTAAGGGGGTGAGTCAAGGTGAATACTGATGCAG
82634144 CTTAA-GGGGTGAGTCAAGGTGAATACTGATGCAG
1 CTTAAGGGGGTGAGTCAAGGTGAATACTGATGCAG
82634178 CT
1 CT
82634180 GTGTATGATG
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 31 0.86
35 5 0.14
ACGTcount: A:0.28, C:0.13, G:0.35, T:0.24
Consensus pattern (35 bp):
CTTAAGGGGGTGAGTCAAGGTGAATACTGATGCAG
Found at i:82634636 original size:32 final size:33
Alignment explanation
Indices: 82634575--82634637 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
82634565 CTACCTCAAT
82634575 GTTAGAAGTTGGTTGATAATTTTTTATTATAAA
1 GTTAGAAGTTGGTTGATAATTTTTTATTATAAA
82634608 GTTAGAAGTTGGTTGATAA-TTTTTATTATA
1 GTTAGAAGTTGGTTGATAATTTTTTATTATA
82634638 TTATGTTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 11 0.37
33 19 0.63
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.49
Consensus pattern (33 bp):
GTTAGAAGTTGGTTGATAATTTTTTATTATAAA
Found at i:82638287 original size:6 final size:6
Alignment explanation
Indices: 82638276--82638304 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
82638266 AAATATCGTA
82638276 AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
82638305 TATATACTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:82643316 original size:19 final size:17
Alignment explanation
Indices: 82643258--82643318 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 17
82643248 GTTTAGAATA
*
82643258 TTTTTAAAATTTTAAAT
1 TTTTTTAAATTTTAAAT
*
82643275 TTTTTTATATATTCTTTAGAT
1 TTTTTTA-A-A-T-TTTAAAT
82643296 TTTTTTAAATTATTAACAT
1 TTTTTTAAATT-TTAA-AT
82643315 TTTT
1 TTTT
82643319 AAAATATAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
17 7 0.20
18 5 0.14
19 8 0.23
20 2 0.06
21 13 0.37
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (17 bp):
TTTTTTAAATTTTAAAT
Found at i:82644351 original size:17 final size:16
Alignment explanation
Indices: 82644328--82644375 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
82644318 TTACCTCCTA
*
82644328 AAAATATAAAATTTTT
1 AAAATATAAAATTATT
82644344 AAAGATAT-AAATTATT
1 AAA-ATATAAAATTATT
82644360 AAAATAATAAAATTAT
1 AAAAT-ATAAAATTAT
82644376 ATTTTTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 2 0.07
16 15 0.54
17 11 0.39
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (16 bp):
AAAATATAAAATTATT
Found at i:82645621 original size:22 final size:24
Alignment explanation
Indices: 82645580--82645635 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
82645570 CTTCAATTTT
82645580 TTTATATTTTTTATACATTT-GAAA
1 TTTA-ATTTTTTATACATTTAGAAA
* *
82645604 TTTAATTTTTT-TATATTTATAAA
1 TTTAATTTTTTATACATTTAGAAA
82645627 TTTAATTTT
1 TTTAATTTT
82645636 AAAATTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 6 0.21
23 19 0.66
24 4 0.14
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (24 bp):
TTTAATTTTTTATACATTTAGAAA
Found at i:82645645 original size:7 final size:7
Alignment explanation
Indices: 82645618--82645655 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
82645608 ATTTTTTTAT
82645618 ATTTATAA
1 ATTTA-AA
82645626 ATTT-AA
1 ATTTAAA
*
82645632 TTTTAAA
1 ATTTAAA
82645639 ATTTAAA
1 ATTTAAA
82645646 ATTTAAA
1 ATTTAAA
82645653 ATT
1 ATT
82645656 CAAGTCTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
6 5 0.19
7 18 0.67
8 4 0.15
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (7 bp):
ATTTAAA
Found at i:82645650 original size:14 final size:13
Alignment explanation
Indices: 82645613--82645655 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
82645603 ATTTAATTTT
*
82645613 TTTATATTTATAAA
1 TTTAAATTTA-AAA
*
82645627 TTTAATTTTAAAA
1 TTTAAATTTAAAA
82645640 TTTAAAATTTAAAA
1 TTT-AAATTTAAAA
82645654 TT
1 TT
82645656 CAAGTCTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 6 0.24
14 19 0.76
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TTTAAATTTAAAA
Found at i:82681679 original size:3 final size:3
Alignment explanation
Indices: 82681673--82681700 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
82681663 TAAAAAAAAA
82681673 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
82681701 CACATTATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:82681953 original size:3 final size:3
Alignment explanation
Indices: 82681945--82681976 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
82681935 ATTAATTTGA
*
82681945 ATT ATT ATT ATT ATT GTT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
82681977 GGTTAGAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:82686087 original size:19 final size:21
Alignment explanation
Indices: 82686051--82686093 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
82686041 TAATAATTTC
82686051 AAAATAATATTTATTTTTTTAT
1 AAAATAATA-TTATTTTTTTAT
82686073 AAAATAATA-TA-TTTTTTAT
1 AAAATAATATTATTTTTTTAT
82686092 AA
1 AA
82686094 TTTCACAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 10 0.48
20 2 0.10
22 9 0.43
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
AAAATAATATTATTTTTTTAT
Found at i:82686456 original size:23 final size:24
Alignment explanation
Indices: 82686411--82686457 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
82686401 AAATGGACAA
82686411 TGTATATGATAATGATCATATATG
1 TGTATATGATAATGATCATATATG
*
82686435 TGTATAT-ATATTGAT-ATGATATG
1 TGTATATGATAATGATCAT-ATATG
82686458 ATATGAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 2 0.10
23 12 0.57
24 7 0.33
ACGTcount: A:0.36, C:0.02, G:0.17, T:0.45
Consensus pattern (24 bp):
TGTATATGATAATGATCATATATG
Found at i:82688539 original size:27 final size:27
Alignment explanation
Indices: 82688487--82688539 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
82688477 GAATTTAAAC
* *
82688487 TAATTTAGAAATTTAATTTTGATGTTA
1 TAATTTAGAAAATAAATTTTGATGTTA
*
82688514 TAATTTATAAAATAAATATTTG-TGTT
1 TAATTTAGAAAATAAAT-TTTGATGTT
82688540 TATTTCTTCG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 18 0.82
28 4 0.18
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (27 bp):
TAATTTAGAAAATAAATTTTGATGTTA
Found at i:82698939 original size:18 final size:19
Alignment explanation
Indices: 82698911--82698946 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
82698901 TTCACATACT
82698911 TTTATTTTTTTCTTTTTTA
1 TTTATTTTTTTCTTTTTTA
82698930 TTTA-TTTTTTCTTTTTT
1 TTTATTTTTTTCTTTTTT
82698947 CTTCCCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.08, C:0.06, G:0.00, T:0.86
Consensus pattern (19 bp):
TTTATTTTTTTCTTTTTTA
Found at i:82700066 original size:15 final size:16
Alignment explanation
Indices: 82700040--82700069 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
82700030 ATTTTAGTAG
82700040 TTTAATCAAAATAAAA
1 TTTAATCAAAATAAAA
82700056 TTTAA-CAAAATAAA
1 TTTAATCAAAATAAA
82700070 TCATTAAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (16 bp):
TTTAATCAAAATAAAA
Found at i:82702640 original size:14 final size:14
Alignment explanation
Indices: 82702623--82702660 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
82702613 TTTAATGATA
82702623 ATATAATAATTACT
1 ATATAATAATTACT
*
82702637 ATATAATTATTACT
1 ATATAATAATTACT
82702651 A-ATACATAAT
1 ATATA-ATAAT
82702661 ATAATATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 3 0.14
14 18 0.86
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATAATAATTACT
Found at i:82702684 original size:15 final size:18
Alignment explanation
Indices: 82702620--82702687 Score: 68
Period size: 18 Copynumber: 3.8 Consensus size: 18
82702610 AACTTTAATG
* *
82702620 ATAATATAATAATTACTAT
1 ATAATATAAT-ATTAATAC
* *
82702639 ATAAT-TATTACTAATAC
1 ATAATATAATATTAATAC
82702656 ATAATATAATATTAATAC
1 ATAATATAATATTAATAC
82702674 AT-ATATAATTATTA
1 ATAATATAA-TATTA
82702688 TTGTAATATA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
17 16 0.39
18 20 0.49
19 5 0.12
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (18 bp):
ATAATATAATATTAATAC
Found at i:82704872 original size:14 final size:13
Alignment explanation
Indices: 82704855--82704908 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 13
82704845 ATAATATAAC
82704855 ATTTATAAATATGA
1 ATTTATAAATAT-A
82704869 ATTTATAACATATAA
1 ATTTATAA-ATAT-A
*
82704884 TATTTATAAAAATA
1 -ATTTATAAATATA
82704898 ATTTTATAAAT
1 A-TTTATAAAT
82704909 TGTCGAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 1 0.03
14 17 0.50
15 8 0.24
16 8 0.24
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (13 bp):
ATTTATAAATATA
Found at i:82704874 original size:32 final size:29
Alignment explanation
Indices: 82704838--82704907 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 29
82704828 TAAATCCCTT
*
82704838 TTTATAGATAATATAACATTTATAAATATGAA
1 TTTATA-A-AATATAACATTTATAAAAAT-AA
* *
82704870 TTTATAACATATAATATTTATAAAAATAA
1 TTTATAAAATATAACATTTATAAAAATAA
82704899 TTTTATAAA
1 -TTTATAAA
82704908 TTGTCGAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 2 0.06
30 24 0.73
31 1 0.03
32 6 0.18
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (29 bp):
TTTATAAAATATAACATTTATAAAAATAA
Found at i:82704889 original size:30 final size:30
Alignment explanation
Indices: 82704848--82704906 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
82704838 TTTATAGATA
*
82704848 ATATAACATTTATAAATATGAA-TTTATAAC
1 ATATAACATTTATAAAAAT-AATTTTATAAC
*
82704878 ATATAATATTTATAAAAATAATTTTATAA
1 ATATAACATTTATAAAAATAATTTTATAA
82704907 ATTGTCGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 24 0.92
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (30 bp):
ATATAACATTTATAAAAATAATTTTATAAC
Found at i:82705841 original size:19 final size:21
Alignment explanation
Indices: 82705807--82705853 Score: 66
Period size: 19 Copynumber: 2.4 Consensus size: 21
82705797 TGTATACTTA
82705807 TATTTATATGATCATATCATC
1 TATTTATATGATCATATCATC
82705828 TATTT-TAT-ATCATATCA--
1 TATTTATATGATCATATCATC
82705845 TATTTATAT
1 TATTTATAT
82705854 AATAATCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 5 0.20
18 3 0.12
19 9 0.36
20 3 0.12
21 5 0.20
ACGTcount: A:0.34, C:0.11, G:0.02, T:0.53
Consensus pattern (21 bp):
TATTTATATGATCATATCATC
Found at i:82715470 original size:17 final size:18
Alignment explanation
Indices: 82715429--82715471 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
82715419 TTGTAAGATA
82715429 ATATAATTATATTAACTT
1 ATATAATTATATTAACTT
**
82715447 ATA-AATTATA-TATTTT
1 ATATAATTATATTAACTT
82715463 ATATAATTA
1 ATATAATTA
82715472 ATAAAATTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 7 0.32
17 12 0.55
18 3 0.14
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
ATATAATTATATTAACTT
Found at i:82720823 original size:17 final size:18
Alignment explanation
Indices: 82720798--82720836 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
82720788 TTAGCATTTG
*
82720798 TTGTGAACTTGTTTAAC-
1 TTGTCAACTTGTTTAACA
82720815 TTGTCAACTTGTTTAACA
1 TTGTCAACTTGTTTAACA
82720833 TTGT
1 TTGT
82720837 ATTTAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.23, C:0.13, G:0.15, T:0.49
Consensus pattern (18 bp):
TTGTCAACTTGTTTAACA
Found at i:82732933 original size:2 final size:2
Alignment explanation
Indices: 82732928--82732962 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
82732918 TAAAAAAGGG
*
82732928 AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
82732963 TTTCAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:82741588 original size:17 final size:18
Alignment explanation
Indices: 82741547--82741589 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
82741537 TTGTAAGATA
82741547 ATATAATTATATTAACTT
1 ATATAATTATATTAACTT
**
82741565 ATA-AATTATA-TATTTT
1 ATATAATTATATTAACTT
82741581 ATATAATTA
1 ATATAATTA
82741590 ATAAAATTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 7 0.32
17 12 0.55
18 3 0.14
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
ATATAATTATATTAACTT
Found at i:82746940 original size:17 final size:18
Alignment explanation
Indices: 82746915--82746953 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
82746905 TTAGCATTTG
*
82746915 TTGTGAACTTGTTTAAC-
1 TTGTCAACTTGTTTAACA
82746932 TTGTCAACTTGTTTAACA
1 TTGTCAACTTGTTTAACA
82746950 TTGT
1 TTGT
82746954 ATTTAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.23, C:0.13, G:0.15, T:0.49
Consensus pattern (18 bp):
TTGTCAACTTGTTTAACA
Found at i:82759048 original size:2 final size:2
Alignment explanation
Indices: 82759043--82759077 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
82759033 TAAAAAAGGG
*
82759043 AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
82759078 TTTCAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:82762211 original size:15 final size:14
Alignment explanation
Indices: 82762191--82762229 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
82762181 AAATTAAATT
82762191 ATTAAACGTGTCAAA
1 ATTAAA-GTGTCAAA
* *
82762206 ATTAAAATATCAAA
1 ATTAAAGTGTCAAA
82762220 ATTAAAGTGT
1 ATTAAAGTGT
82762230 ATTTTAAGCA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
14 14 0.70
15 6 0.30
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (14 bp):
ATTAAAGTGTCAAA
Found at i:82780519 original size:69 final size:70
Alignment explanation
Indices: 82780407--82780580 Score: 262
Period size: 69 Copynumber: 2.5 Consensus size: 70
82780397 CCAACAATAC
* *
82780407 TAACTACGATTATAAGTAATTTCTAGACACCAGA-AGCCACTCAGTCGCATTCCAAAATGCAGTC
1 TAACTACGATTATAAGTAATTTCTAGACATCAGAGAGCCACTCAGTCGCATTCCAAAATGCAATC
82780471 AATTA
66 AATTA
* * *
82780476 TAACTATGATTATAAGTAATTTCTAGACATCAGAGATCC-CTCAGTTGCATTCCAAAATGCAATC
1 TAACTACGATTATAAGTAATTTCTAGACATCAGAGAGCCACTCAGTCGCATTCCAAAATGCAATC
*
82780540 AGTTA
66 AATTA
* *
82780545 TAACTACGATTTTAAGTAATTTCTACACATCAGAGA
1 TAACTACGATTATAAGTAATTTCTAGACATCAGAGA
82780581 CCATCATTCA
Statistics
Matches: 95, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
69 92 0.97
70 3 0.03
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (70 bp):
TAACTACGATTATAAGTAATTTCTAGACATCAGAGAGCCACTCAGTCGCATTCCAAAATGCAATC
AATTA
Found at i:82781546 original size:3 final size:3
Alignment explanation
Indices: 82781538--82781587 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
82781528 ACAAATTTGA
82781538 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
82781586 AA
1 AA
82781588 AGGGCCTAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:82783086 original size:81 final size:83
Alignment explanation
Indices: 82782989--82783189 Score: 325
Period size: 81 Copynumber: 2.4 Consensus size: 83
82782979 AAATAAAAGA
* * *
82782989 AAAGCTTTGATTTAATGATCGTCTAAACTTGATCTTAAATAAATGTGGGTCGATTGGATAAATCA
1 AAAGCTTTGATCTAATGATCGTCTAAACTTAATCTTAAATAAATGTGGGCCGATTGGATAAATCA
82783054 TATT-TTTTT-CCTTGAT
66 TATTATTTTTCCCTTGAT
82783070 AAAGCTTTGATCTAATGATCGTCTAAACTTAATCTTAAATAAATGTGGGCCGATTGGATAAATCA
1 AAAGCTTTGATCTAATGATCGTCTAAACTTAATCTTAAATAAATGTGGGCCGATTGGATAAATCA
*
82783135 TTTTATTTTTCCCCTTGAT
66 TATTATTTTT-CCCTTGAT
* *
82783154 AAAGCTTTGATCTAATGATTGTATAAACTTAATCTT
1 AAAGCTTTGATCTAATGATCGTCTAAACTTAATCTT
82783190 TGATAGACTT
Statistics
Matches: 111, Mismatches: 6, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
81 65 0.59
82 5 0.05
84 41 0.37
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.41
Consensus pattern (83 bp):
AAAGCTTTGATCTAATGATCGTCTAAACTTAATCTTAAATAAATGTGGGCCGATTGGATAAATCA
TATTATTTTTCCCTTGAT
Found at i:82784796 original size:13 final size:13
Alignment explanation
Indices: 82784770--82784809 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
82784760 CAGGGTGAGA
*
82784770 AATAAAAATCATAT
1 AATAAAAA-AATAT
82784784 AATAAAAAAATAT
1 AATAAAAAAATAT
*
82784797 AAAAAAAAAATAT
1 AATAAAAAAATAT
82784810 TTTGAAGGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 16 0.67
14 8 0.33
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.23
Consensus pattern (13 bp):
AATAAAAAAATAT
Found at i:82785373 original size:141 final size:141
Alignment explanation
Indices: 82785215--82785492 Score: 547
Period size: 141 Copynumber: 2.0 Consensus size: 141
82785205 TGCCACATAG
82785215 GATTTAATGTATCATTTAATAGCTTTAATAATTGAAGAACCTAATTGATATAACATTGATAGTTT
1 GATTTAATGTATCATTTAATAGCTTTAATAATTGAAGAACCTAATTGATATAACATTGATAGTTT
*
82785280 AGAGATGTTATTAAAATATTTTAAAGTTTGGAGACTAAATTTTTATTTTTTTAGTTCTCTTTGAT
66 AGAGATGTTATTAAAATATTTTAAAGTTTGGAGACCAAATTTTTATTTTTTTAGTTCTCTTTGAT
82785345 TTTTTGGATAA
131 TTTTTGGATAA
82785356 GATTTAATGTATCATTTAATAGCTTTAATAATTGAAGAACCTAATTGATATAACATTGATAGTTT
1 GATTTAATGTATCATTTAATAGCTTTAATAATTGAAGAACCTAATTGATATAACATTGATAGTTT
82785421 AGAGATGTTATTAAAATATTTTAAAGTTTGGAGACCAAATTTTTATTTTTTTAGTTCTCTTTGAT
66 AGAGATGTTATTAAAATATTTTAAAGTTTGGAGACCAAATTTTTATTTTTTTAGTTCTCTTTGAT
82785486 TTTTTGG
131 TTTTTGG
82785493 GCCAGTTTTA
Statistics
Matches: 136, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
141 136 1.00
ACGTcount: A:0.33, C:0.06, G:0.14, T:0.47
Consensus pattern (141 bp):
GATTTAATGTATCATTTAATAGCTTTAATAATTGAAGAACCTAATTGATATAACATTGATAGTTT
AGAGATGTTATTAAAATATTTTAAAGTTTGGAGACCAAATTTTTATTTTTTTAGTTCTCTTTGAT
TTTTTGGATAA
Found at i:82785628 original size:26 final size:26
Alignment explanation
Indices: 82785588--82785637 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
82785578 TAATAACGGA
*
82785588 TTGCTCTATTCTTATTATTTTGTTAC
1 TTGCTCTATTCTTATTATTATGTTAC
*
82785614 TTGCTCTATTTTTATTATTATGTT
1 TTGCTCTATTCTTATTATTATGTT
82785638 TTTATGGAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.16, C:0.12, G:0.08, T:0.64
Consensus pattern (26 bp):
TTGCTCTATTCTTATTATTATGTTAC
Found at i:82786796 original size:40 final size:41
Alignment explanation
Indices: 82786741--82786822 Score: 105
Period size: 40 Copynumber: 2.0 Consensus size: 41
82786731 GTTTGGGATG
* * *
82786741 ATTATGAAAATAAATTTTCTTATATTATAAAA-TATAA-AAA
1 ATTATAAAAATAAATTGT-GTATATTATAAAATTATAACAAA
*
82786781 ATTATAAAAATAAATTGTGTATTTTATAAAATTATAACAAA
1 ATTATAAAAATAAATTGTGTATATTATAAAATTATAACAAA
82786822 A
1 A
82786823 AAAATTATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
39 11 0.31
40 21 0.58
41 4 0.11
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (41 bp):
ATTATAAAAATAAATTGTGTATATTATAAAATTATAACAAA
Found at i:82788120 original size:19 final size:21
Alignment explanation
Indices: 82788092--82788148 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
82788082 ATATTAATTA
82788092 AAATTTTAAAAATATAA-AAT
1 AAATTTTAAAAATATAATAAT
** *
82788112 TTA-TTT-AAATTATAATAAT
1 AAATTTTAAAAATATAATAAT
82788131 AAATTTTAAAAATATAAT
1 AAATTTTAAAAATATAAT
82788149 TACTAAAATT
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
18 8 0.29
19 7 0.25
20 4 0.14
21 9 0.32
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AAATTTTAAAAATATAATAAT
Found at i:82795108 original size:20 final size:20
Alignment explanation
Indices: 82795060--82795109 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
82795050 TGTTATATAC
* *
82795060 GTATATATTTTATATATTAT
1 GTATATATTATACATATTAT
* * *
82795080 TTTTTTATTATACATATTAT
1 GTATATATTATACATATTAT
82795100 GTATATATTA
1 GTATATATTA
82795110 AATATCGTAT
Statistics
Matches: 22, Mismatches: 8, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (20 bp):
GTATATATTATACATATTAT
Found at i:82795165 original size:2 final size:2
Alignment explanation
Indices: 82795160--82795192 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
82795150 TCTTTAATAA
82795160 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
82795193 AGTATAACTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:82796749 original size:22 final size:25
Alignment explanation
Indices: 82796724--82796769 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
82796714 AAAGAGCACA
82796724 AATGTGCT-A-AAT-GGAGAGCATT
1 AATGTGCTAATAATCGGAGAGCATT
*
82796746 AATGTGTTAATAATCGGAGAGCAT
1 AATGTGCTAATAATCGGAGAGCAT
82796770 GCTAAGGTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 7 0.35
23 1 0.05
24 3 0.15
25 9 0.45
ACGTcount: A:0.37, C:0.09, G:0.26, T:0.28
Consensus pattern (25 bp):
AATGTGCTAATAATCGGAGAGCATT
Found at i:82799241 original size:22 final size:23
Alignment explanation
Indices: 82799208--82799263 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
82799198 TTATTTCAAT
*
82799208 AATTATAATTTTTA-AAGAATTA
1 AATTATAATTTTTATAAAAATTA
*
82799230 AATTA-AATTTTTATCAAAATTA
1 AATTATAATTTTTATAAAAATTA
*
82799252 AAATATAATTTT
1 AATTATAATTTT
82799264 ATTATTTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 8 0.28
22 15 0.52
23 6 0.21
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (23 bp):
AATTATAATTTTTATAAAAATTA
Found at i:82799989 original size:31 final size:31
Alignment explanation
Indices: 82799951--82800012 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
82799941 AAATTCAATT
82799951 GGTTATGCGGATTAATCAATTATTTTTTTTA
1 GGTTATGCGGATTAATCAATTATTTTTTTTA
82799982 GGTTATGCGGATTAATCAATTATTTTTTTTA
1 GGTTATGCGGATTAATCAATTATTTTTTTTA
82800013 CTATAGTCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.26, C:0.06, G:0.16, T:0.52
Consensus pattern (31 bp):
GGTTATGCGGATTAATCAATTATTTTTTTTA
Found at i:82803494 original size:26 final size:26
Alignment explanation
Indices: 82803453--82803502 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
82803443 TAATAACGGA
*
82803453 TTGCTCTATTCGTATTATTTTGTTAC
1 TTGCTCTATTCGTATTATTATGTTAC
**
82803479 TTGCTCTATTTTTATTATTATGTT
1 TTGCTCTATTCGTATTATTATGTT
82803503 TTTATAGAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.16, C:0.12, G:0.10, T:0.62
Consensus pattern (26 bp):
TTGCTCTATTCGTATTATTATGTTAC
Found at i:82805441 original size:22 final size:23
Alignment explanation
Indices: 82805416--82805458 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
82805406 TTGAGATGTT
82805416 TAAAAATAAATAATA-ATATAGA
1 TAAAAATAAATAATATATATAGA
*
82805438 TAAAAATATATAATATATATA
1 TAAAAATAAATAATATATATA
82805459 CAAATAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (23 bp):
TAAAAATAAATAATATATATAGA
Found at i:82805452 original size:19 final size:18
Alignment explanation
Indices: 82805423--82805465 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
82805413 GTTTAAAAAT
82805423 AAATAATAATATAGATAA
1 AAATAATAATATAGATAA
* *
82805441 AAATATATAATATATATAC
1 AAATA-ATAATATAGATAA
82805460 AAATAA
1 AAATAA
82805466 AAAGATATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (18 bp):
AAATAATAATATAGATAA
Found at i:82805465 original size:25 final size:22
Alignment explanation
Indices: 82805416--82805473 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
82805406 TTGAGATGTT
* *
82805416 TAAAAATAAATAATAATATAGA
1 TAAAAATATATAATAATATAAA
82805438 TAAAAATATATAATATATATACAAA
1 TAAAAATATATAATA-ATAT--AAA
*
82805463 TAAAAAGATAT
1 TAAAAATATAT
82805474 CTATCGACAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
22 14 0.47
23 4 0.13
25 12 0.40
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (22 bp):
TAAAAATATATAATAATATAAA
Found at i:82810020 original size:46 final size:44
Alignment explanation
Indices: 82809961--82810075 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
82809951 ACAGGACAGA
* *
82809961 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
82810007 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
82810051 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
82810076 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:82810056 original size:44 final size:45
Alignment explanation
Indices: 82809961--82810094 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
82809951 ACAGGACAGA
* *
82809961 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
82810007 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
82810051 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
82810095 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:82818042 original size:16 final size:17
Alignment explanation
Indices: 82818006--82818046 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
82817996 AAACTTAAAG
* *
82818006 TTTTAGTATTTATTTTA
1 TTTTAATATTTATTATA
82818023 TTTTAATATTTA-TATA
1 TTTTAATATTTATTATA
82818039 TTTTAATA
1 TTTTAATA
82818047 AAAGATAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 11 0.50
17 11 0.50
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (17 bp):
TTTTAATATTTATTATA
Found at i:82819643 original size:3 final size:3
Alignment explanation
Indices: 82819570--82819677 Score: 83
Period size: 3 Copynumber: 35.0 Consensus size: 3
82819560 TTTTTGTTGT
* * * * *
82819570 TTA TTC TTA TT- TTC TTA TTAA ATA TTC TTA TTA TTTA TATA ATA TTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA -TTA T-TA TTA TTA
* * * * *
82819617 GTA CTA TTA CTA TTG TTC TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
82819665 TTA TTA TGTA TTA
1 TTA TTA T-TA TTA
82819678 GTTTATGTTT
Statistics
Matches: 83, Mismatches: 17, Indels: 10
0.75 0.15 0.09
Matches are distributed among these distances:
2 2 0.02
3 71 0.86
4 10 0.12
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:82819909 original size:15 final size:15
Alignment explanation
Indices: 82819876--82819914 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
82819866 TTTAATGTCG
*
82819876 TATTATTATGTTTTAA
1 TATTA-TATATTTTAA
*
82819892 TATTATATATTTTCA
1 TATTATATATTTTAA
82819907 TATTATAT
1 TATTATAT
82819915 TATATACATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (15 bp):
TATTATATATTTTAA
Found at i:82822522 original size:26 final size:25
Alignment explanation
Indices: 82822487--82822586 Score: 87
Period size: 26 Copynumber: 3.9 Consensus size: 25
82822477 AGTAAATAAT
82822487 AATTTAAAAATAATTAATATAAAAAAC
1 AATTT-AAAATAA-TAATATAAAAAAC
82822514 AATTTAAAATAA-AATATATATAAAAC
1 AATTTAAAATAATAATATA-A-AAAAC
* * * *
82822540 AATCTAAAATGACTAATTTATAAAAC
1 AATTTAAAAT-AATAATATAAAAAAC
* *
82822566 AATTTAAGACAAT-ATATAAAA
1 AATTTAAAATAATAATATAAAA
82822587 GTTTAAACTA
Statistics
Matches: 59, Mismatches: 10, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
24 12 0.20
25 3 0.05
26 33 0.56
27 6 0.10
28 5 0.08
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.30
Consensus pattern (25 bp):
AATTTAAAATAATAATATAAAAAAC
Found at i:82822674 original size:26 final size:25
Alignment explanation
Indices: 82822645--82822702 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 25
82822635 ATAAAGCAGT
*
82822645 TTTAAA-AAATAATACTGTAAAAGAAA
1 TTTAAAGAAATAACA-TGTAAAA-AAA
*
82822671 TTTAAAGTAAATAACATGTAAAATAA
1 TTTAAAG-AAATAACATGTAAAAAAA
82822697 TTTAAA
1 TTTAAA
82822703 CCAAGTAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 14 0.50
27 7 0.25
28 7 0.25
ACGTcount: A:0.59, C:0.03, G:0.07, T:0.31
Consensus pattern (25 bp):
TTTAAAGAAATAACATGTAAAAAAA
Found at i:82822690 original size:27 final size:27
Alignment explanation
Indices: 82822651--82822702 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
82822641 CAGTTTTAAA
*
82822651 AAATAATACTGTAAAAGAAATTTAAAGT
1 AAATAACACTGTAAAA-AAATTTAAAGT
*
82822679 AAATAACA-TGTAAAATAATTTAAA
1 AAATAACACTGTAAAAAAATTTAAA
82822703 CCAAGTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 8 0.36
27 7 0.32
28 7 0.32
ACGTcount: A:0.60, C:0.04, G:0.08, T:0.29
Consensus pattern (27 bp):
AAATAACACTGTAAAAAAATTTAAAGT
Found at i:82823459 original size:18 final size:17
Alignment explanation
Indices: 82823410--82823476 Score: 61
Period size: 18 Copynumber: 4.0 Consensus size: 17
82823400 ATAATGAAAG
*
82823410 ATAATGATAAAATAATA
1 ATAATGCTAAAATAATA
*
82823427 ATAA-ACTAAGGAATAATA
1 ATAATGCTAA--AATAATA
82823445 ATAATGCTAACAATAAT-
1 ATAATGCTAA-AATAATA
82823462 ATAATG-T-AAATAATA
1 ATAATGCTAAAATAATA
82823477 TAACAAAAGA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
14 6 0.14
15 1 0.02
16 4 0.10
17 10 0.24
18 17 0.40
19 4 0.10
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.28
Consensus pattern (17 bp):
ATAATGCTAAAATAATA
Found at i:82827269 original size:28 final size:29
Alignment explanation
Indices: 82827206--82827268 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
82827196 TATAATCTAT
*
82827206 ATTTTTATAATTTTTAAAAATTAAATTAA
1 ATTTTTATAATTTTTAAAAATTAAAGTAA
* *
82827235 ATTTTTATAA-TTTTAAAGAGTTGAAGTAA
1 ATTTTTATAATTTTTAAA-AATTAAAGTAA
82827264 ATTTT
1 ATTTT
82827269 ACTTTTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 7 0.23
29 23 0.77
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (29 bp):
ATTTTTATAATTTTTAAAAATTAAAGTAA
Found at i:82834834 original size:20 final size:20
Alignment explanation
Indices: 82834809--82834846 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
82834799 GCTTTTATCT
82834809 AATATATTGTTT-AAATTTGA
1 AATATA-TGTTTGAAATTTGA
82834829 AATATATGTTTGAAATTT
1 AATATATGTTTGAAATTT
82834847 TATCTAGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (20 bp):
AATATATGTTTGAAATTTGA
Found at i:82835597 original size:6 final size:6
Alignment explanation
Indices: 82835588--82835615 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
82835578 CAGTTGAAGT
82835588 TGCAGG TGCAGG TGCAGG TGCAGG TGCA
1 TGCAGG TGCAGG TGCAGG TGCAGG TGCA
82835616 TATATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.18, G:0.46, T:0.18
Consensus pattern (6 bp):
TGCAGG
Found at i:82838403 original size:26 final size:27
Alignment explanation
Indices: 82838374--82838424 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
82838364 AAAGTAAACA
*
82838374 ATAAAAC-AATTTAAAATGAATAATAC
1 ATAAAACAAATTTAAAATAAATAATAC
82838400 ATAAAACAAATTTAAAATAAATAAT
1 ATAAAACAAATTTAAAATAAATAAT
82838425 GTATAAAGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.27
Consensus pattern (27 bp):
ATAAAACAAATTTAAAATAAATAATAC
Found at i:82838789 original size:17 final size:19
Alignment explanation
Indices: 82838753--82838792 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
82838743 AAAAGGTATT
*
82838753 TAATAGTTTTCAAAATATA
1 TAATAGTTTTCAAAACATA
82838772 TAATA-TTTT-AAAACATA
1 TAATAGTTTTCAAAACATA
82838789 TAAT
1 TAAT
82838793 GTATATGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 11 0.55
18 4 0.20
19 5 0.25
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (19 bp):
TAATAGTTTTCAAAACATA
Found at i:82838789 original size:19 final size:19
Alignment explanation
Indices: 82838753--82838790 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
82838743 AAAAGGTATT
*
82838753 TAATAGTTTTCAAAATATA
1 TAATAGTTTTAAAAATATA
82838772 TAATA-TTTTAAAACATATA
1 TAATAGTTTTAAAA-ATATA
82838791 ATGTATATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (19 bp):
TAATAGTTTTAAAAATATA
Found at i:82838882 original size:25 final size:26
Alignment explanation
Indices: 82838832--82838888 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
82838822 CCAGAATATG
* *
82838832 TAAAAACTTAGAATACATGATGATAA
1 TAAAAACTTAAAATACATAATGATAA
*
82838858 TAAAAATTTAAAATACATAAT-ATAA
1 TAAAAACTTAAAATACATAATGATAA
*
82838883 GAAAAA
1 TAAAAA
82838889 ACAAACTTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
25 9 0.33
26 18 0.67
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.26
Consensus pattern (26 bp):
TAAAAACTTAAAATACATAATGATAA
Found at i:82842073 original size:22 final size:23
Alignment explanation
Indices: 82842048--82842092 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
82842038 CCGGAGCTCC
82842048 CTCTCCCTCTCCCCT-TTCTTTT
1 CTCTCCCTCTCCCCTCTTCTTTT
*
82842070 CTCTCCCTCTCCTCTCTTCTTTT
1 CTCTCCCTCTCCCCTCTTCTTTT
82842093 TTTTTCTTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (23 bp):
CTCTCCCTCTCCCCTCTTCTTTT
Found at i:82842881 original size:20 final size:20
Alignment explanation
Indices: 82842856--82842907 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 20
82842846 TTTCTTTTTC
82842856 ATATTATTATTATAATATAT
1 ATATTATTATTATAATATAT
* *
82842876 ATATTA-TA-TAT-TTATGT
1 ATATTATTATTATAATATAT
82842893 ATATTATTATATATA
1 ATATTATTAT-TATA
82842908 TTTTTAATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
17 10 0.38
18 5 0.19
19 2 0.08
20 9 0.35
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
ATATTATTATTATAATATAT
Found at i:82842898 original size:31 final size:30
Alignment explanation
Indices: 82842863--82842924 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 30
82842853 TTCATATTAT
82842863 TATTATAATATATATATTATATAT-TTATGTA
1 TATTATAATATATAT-TTATA-ATGTTATGTA
* *
82842894 TATTATTATATATATTTTTAATGTTATGTA
1 TATTATAATATATATTTATAATGTTATGTA
82842924 T
1 T
82842925 TGTATATTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 2 0.07
30 12 0.43
31 14 0.50
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (30 bp):
TATTATAATATATATTTATAATGTTATGTA
Found at i:82842917 original size:25 final size:24
Alignment explanation
Indices: 82842862--82842931 Score: 63
Period size: 25 Copynumber: 2.8 Consensus size: 24
82842852 TTTCATATTA
*
82842862 TTAT-TATAATATATATATTATATAT
1 TTATGTATATTAT-TATA-TATATAT
*
82842887 TTATGTATATTATTATATATATTT
1 TTATGTATATTATTATATATATAT
*
82842911 TTAATGT-TATGTATTGTATAT
1 TT-ATGTATAT-TATTATATAT
82842932 TTCTTACTGT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
24 11 0.28
25 21 0.54
26 7 0.18
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.59
Consensus pattern (24 bp):
TTATGTATATTATTATATATATAT
Found at i:82842947 original size:23 final size:23
Alignment explanation
Indices: 82842904--82842947 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
82842894 TATTATTATA
*
82842904 TATATTTTTAATGTTATGTATTG
1 TATATTTTTAATGTTACGTATTG
*
82842927 TATATTTCTTACTGTT-CGTAT
1 TATATTT-TTAATGTTACGTAT
82842948 ACTTTTACGT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 11 0.61
24 7 0.39
ACGTcount: A:0.23, C:0.07, G:0.11, T:0.59
Consensus pattern (23 bp):
TATATTTTTAATGTTACGTATTG
Found at i:82843119 original size:2 final size:2
Alignment explanation
Indices: 82843086--82843110 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
82843076 TATCTTTAAC
82843086 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
82843111 GGCATATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.